Locus 5163

Sequence ID dm3.chr2R
Location 18,250,178 – 18,250,289
Length 111
Max. P 0.995667
window7080 window7081

overview

Window 0

Location 18,250,178 – 18,250,289
Length 111
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 72.61
Shannon entropy 0.49577
G+C content 0.37246
Mean single sequence MFE -28.50
Consensus MFE -16.38
Energy contribution -17.38
Covariance contribution 1.00
Combinations/Pair 1.39
Mean z-score -2.53
Structure conservation index 0.57
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.83
SVM RNA-class probability 0.995667
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 18250178 111 + 21146708
UUUCCCCACUCCAUUUGUAAUUUAAAUGCGGCGUUUCUGUAGAUCUCCACUAGAUAGCCAUAAGGUACCGAAUAAUUAAUUUGUAGUUAAAUGCAGCUGGAGAUUUGCCGA
......(.((.((((((.....)))))).)).)..((.(((((((((((.......(((....)))..............(((((......))))).))))))))))).)) ( -24.10, z-score =  -1.18, R)
>droYak2.chr2R 17998023 111 + 21139217
UUUCGCCACUGCAUUUGCAAUUUAAAUGCGGCAUUUCUGUAGAUCUUCACUUGAUAGCCAUAAGGUACCCAAUAAUUAAUUUGCAGUUAAAUGCAGCUGCAGUUUUGUCGA
..((((.((((((.(((((.(((((.(((((((((...((.(.....)))..))).)))....((...))............))).)))))))))).))))))...).))) ( -25.60, z-score =  -0.88, R)
>droSec1.super_9 1558124 111 + 3197100
UUUCCCCGCUGCAUUUGUAAUUUAAAUGCGGCGUUUCUGUAGAUCUCCACUAGAUAGCCAUAAGGUGCCGAAUAAUUAAUUUGCAGUUAAAUGCAGCUGGAGAUUUGCCGA
......(((((((((((.....)))))))))))..((.(((((((((((.......(((....)))..............(((((......))))).))))))))))).)) ( -37.40, z-score =  -4.07, R)
>droSim1.chr2R 16847511 111 + 19596830
UUUUCCCGCUGCAUUUGAAAUUUAAAUGCGGCGUUUCUGUAGAUCUCCACUAGAUAGCCAUAAGGUACCGAAUAAAUAAUUUGCAGUUAAAUGCAGCUGGAGAUUUGCCGA
......((((((((((((...))))))))))))..((.(((((((((((.......(((....)))..............(((((......))))).))))))))))).)) ( -37.00, z-score =  -4.39, R)
>droWil1.scaffold_180697 4034030 105 - 4168966
-UUUAACAGCAUUUUAAAAGUUGAAAGCCGGAAAUACAUCAAGUUUUUA----ACAUCGGUUGGAAAUUGACAAAACACCACA-AGUAAAAGAAUGCUUAAAAUUAGAAUA
-......((((((((....(((((((((..((......))..)))))))----))...(((((........))....)))...-......))))))))............. ( -18.40, z-score =  -2.11, R)
>consensus
UUUCCCCACUGCAUUUGAAAUUUAAAUGCGGCGUUUCUGUAGAUCUCCACUAGAUAGCCAUAAGGUACCGAAUAAUUAAUUUGCAGUUAAAUGCAGCUGGAGAUUUGCCGA
........(((((((((.....))))))))).......(((((((((((.......(((....)))..............(((((......))))).)))))))))))... (-16.38 = -17.38 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 18,250,178 – 18,250,289
Length 111
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 72.61
Shannon entropy 0.49577
G+C content 0.37246
Mean single sequence MFE -24.62
Consensus MFE -13.90
Energy contribution -13.18
Covariance contribution -0.72
Combinations/Pair 1.58
Mean z-score -1.29
Structure conservation index 0.56
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.53
SVM RNA-class probability 0.730174
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 18250178 111 - 21146708
UCGGCAAAUCUCCAGCUGCAUUUAACUACAAAUUAAUUAUUCGGUACCUUAUGGCUAUCUAGUGGAGAUCUACAGAAACGCCGCAUUUAAAUUACAAAUGGAGUGGGGAAA
........((((((.((.(((((...................((((((....)).))))..((((...((....))....))))...........))))).)))))))).. ( -23.50, z-score =  -0.74, R)
>droYak2.chr2R 17998023 111 - 21139217
UCGACAAAACUGCAGCUGCAUUUAACUGCAAAUUAAUUAUUGGGUACCUUAUGGCUAUCAAGUGAAGAUCUACAGAAAUGCCGCAUUUAAAUUGCAAAUGCAGUGGCGAAA
(((.(...((((((..(((((((((.(((.......(((((.((((((....)).)))).))))).......((....))..))).))))).))))..)))))).)))).. ( -30.70, z-score =  -2.45, R)
>droSec1.super_9 1558124 111 - 3197100
UCGGCAAAUCUCCAGCUGCAUUUAACUGCAAAUUAAUUAUUCGGCACCUUAUGGCUAUCUAGUGGAGAUCUACAGAAACGCCGCAUUUAAAUUACAAAUGCAGCGGGGAAA
........(((((.((((((((....((.((.((((.....((((.((....))...(((.((((....)))))))...))))...)))).)).))))))))))))))).. ( -31.30, z-score =  -2.65, R)
>droSim1.chr2R 16847511 111 - 19596830
UCGGCAAAUCUCCAGCUGCAUUUAACUGCAAAUUAUUUAUUCGGUACCUUAUGGCUAUCUAGUGGAGAUCUACAGAAACGCCGCAUUUAAAUUUCAAAUGCAGCGGGAAAA
..........(((.(((((((((.((((.((........)))))).......(((..(((.((((....)))))))...))).............))))))))).)))... ( -28.00, z-score =  -1.87, R)
>droWil1.scaffold_180697 4034030 105 + 4168966
UAUUCUAAUUUUAAGCAUUCUUUUACU-UGUGGUGUUUUGUCAAUUUCCAACCGAUGU----UAAAAACUUGAUGUAUUUCCGGCUUUCAACUUUUAAAAUGCUGUUAAA-
.............((((((........-..((((................))))..((----(.(((.((.((......)).)).))).)))......))))))......- (  -9.59, z-score =   1.23, R)
>consensus
UCGGCAAAUCUCCAGCUGCAUUUAACUGCAAAUUAAUUAUUCGGUACCUUAUGGCUAUCUAGUGGAGAUCUACAGAAACGCCGCAUUUAAAUUACAAAUGCAGUGGGGAAA
..........(((.(((((((((...(((..(........)..))).....((((......((((....))))......))))............))))))))).)))... (-13.90 = -13.18 +  -0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:42:59 2011